José Utrilla Carreri

Synthetic Biology Researcher

Associate Professor

Academic history

Dr. José Utrilla Carreri is a Biochemical Engineer, he did a PhD in the metabolic engineering group of the IBt-UNAM. He is an expert in metabolic engineering, systems and synthetic biology.
He has developed bacterial production strains and applied in bioprocesses at pilot scale with the collaboration of Mexican companies. He carried out a posdoctoc at the systems biology research group (SBRG) at University of California in San Diego under Prof. Bernhard O. Palsson supervision, there he studied the genotype-phenotype relations in laboratory evolved Escherichia coli strains using genome-scale computational modeling. On november 2014 he started a position as a Associated Researcher in the UNAM Center for Genomic Sciences. He is a member of the national researcher sistem (Level I), and he is a professor in the Genomic Sciences undergraduate program, a tutor in the Biomedical Sciences graduate program and he is currently supervising bachelors, masters and doctorate thesis. Dr. Utrilla´s specific research topics include the design of genome scale computational tools to guide the optimization of microbial cell factories. The design of synthetic phenotypes through the engineering of the regulatory network. The engineering of the Escherichia coli´s transcription and translation machinery to allocate cellular resources to synthetic biology applications. Dr. Jose Utrilla is also involved in several collaborations to develop new bacterial production chassis, multiscale synthetic biology applications and alternative carbon source utilization for sustainable biobased chemical production.



Thomson Reuters ResearcherID

Telephone: (777) 3291686


2022Reyes-González D, De Luna-Valenciano H, Utrilla J, Sieber M, Peña-Miller R, Fuentes-Hernández A. (2022). "Dynamic proteome allocation regulates the profile of interaction of auxotrophic bacterial consortia.". Royal Society open science. 9(5):212008-212008. [doi:10.1098/rsos.212008]35592760
2021Hidalgo, D., Martínez-Ortiz, C.A., O. Palsson, B., Jiménez, J.I., Utrilla, J.. (2021). "Regulatory perturbations of ribosome allocation reshape the growth proteome with a trade-off in adaptation capacity". bioRxiv. ():-. [doi:]
2020Moreno-Avitia, Fabian, Utrilla, Jose, Bolivar, Francisco, Nogales, Juan, Escalante, Adelfo. (2020). "Metabolic reconstruction ofPseudomonas chlororaphisATCC 9446 to understand its metabolic potential as a phenazine-1-carboxamide-producing strain". Applied Microbiology And Biotechnology. 104(23):10119-10132. [doi:10.1007/s00253-020-10913-4]32984920
2020de la Cruz, M., Ramírez, E.A., Sigala, J.C., Utrilla, J., Lara, A.R.. (2020). "Plasmid DNA Production in Proteome-Reduced Escherichia coli .". Microorganisms. 8(9):1-8. [doi:10.3390/microorganisms8091444]32967123
2020Lastiri-Pancardo, G., Mercado-Hernández, J.S., Kim, J., Jiménez, J.I., Utrilla, J.. (2020). "A quantitative method for proteome reallocation using minimal regulatory interventions.". NATURE CHEMICAL BIOLOGY. 16(9):1026-1033. [doi:10.1038/s41589-020-0593-y]32661378
2020Kim, J., Darlington, A., Salvador, M., Utrilla, J., Jiménez, J.I.. (2020). "Trade-offs between gene expression, growth and phenotypic diversity in microbial populations". CURRENT OPINION IN BIOTECHNOLOGY. 62():29-37. [doi:10.1016/j.copbio.2019.08.004]31580950
2019Astudillo-Melgar, Fernando, Ochoa-Leyva, Adrian, Utrilla, Jose, Huerta-Beristain, Gerardo. (2019). "Bacterial Diversity and Population Dynamics During the Fermentation of Palm Wine From Guerrero Mexico.". Frontiers in Microbiology. 10():-. [doi:10.3389/fmicb.2019.00531]30967846
2018Latif, H., Federowicz, S., Ebrahim, A., Tarasova, J., Szubin, R., Utrilla, J., Zengler, K., Palsson, B.O.. (2018). "ChIP-exo interrogation of Crp, DNA, and RNAP holoenzyme interactions". Plos One. 13(5):-. [doi:10.1371/journal.pone.0197272]29771928
2017Steffani-Vallejo, J.L., Zuñiga, C., Cruz-Morales, P., Lozano, L., Morales, M., Licona-Cassani, C., Revah, S., Utrilla, J.. (2017). "Draft genome sequence of Sphingobacterium sp. CZ-UAM, isolated from a methanotrophic consortium". Microbiology Resource Announcements. 5(33):-. [doi:10.1128/genomeA.00792-17]28818899
2017Moreno-Avitia, F., Lozano, L., Utrilla, J., Bolívar, F., Escalante, A.. (2017). "Draft genome sequence of pseudomonas chlororaphis ATCC 9446, a nonpathogenic bacterium with bioremediation and industrial potential". Microbiology Resource Announcements. 5(23):-. [doi:10.1128/genomeA.00474-17]28596401
2017Utrilla, Jose. (2017). "Evolutionary Engineering of Microorganisms to Overcome Toxicity During Lignocellulose Hydrolysates Utilization". Engineering of Microorganisms for the Production of Chemicals and Biofuels from Renewable Resources. ():181-200. [doi:]
2016Utrilla, Jose, Vargas-Tah, Alejandra, Trujillo-Martinez, Berenice, Gosset, Guillermo, Martinez, Alfredo. (2016). "Production of D-lactate from sugarcane bagasse and corn stover hydrolysates using metabolic engineered Escherichia coli strains". BIORESOURCE TECHNOLOGY. 220():208-214. [doi:10.1016/j.biortech.2016.08.067]27573474
2016Utrilla, J., O'Brien, E.J., Chen, K., McCloskey, D., Cheung, J., Wang, H., Armenta-Medina, D., Feist, A.M., Palsson, B.O.. (2016). "Global Rebalancing of Cellular Resources by Pleiotropic Point Mutations Illustrates a Multi-scale Mechanism of Adaptive Evolution". Cell systems. 2(4):260-271. [doi:10.1016/j.cels.2016.04.003]27135538
2010Orencio-Trejo, M., Utrilla, J., Fernandez-Sandoval, M. T., Huerta-Beristain, G., Gosset, G., Martinez, A.. (2010). "Engineering the Escherichia coli Fermentative Metabolism". Biosystems Engineering II: Linking Cellular Networks And Bioprocesses. 121():71-107. [doi:10.1007/10_2009_61]